dStruct

This is the development version of dStruct; for the stable release version, see dStruct.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14

Identifying differentially reactive regions from RNA structurome profiling data

Bioconductor version: Development (3.24)

dStruct identifies differentially reactive regions from RNA structurome profiling data. dStruct is compatible with a broad range of structurome profiling technologies, e.g., SHAPE-MaP, DMS-MaPseq, Structure-Seq, SHAPE-Seq, etc. See Choudhary et al., Genome Biology, 2019 for the underlying method.

Author: Krishna Choudhary [aut, cre] ORCID: 0000-0002-7966-1527 , Sharon Aviran [aut] ORCID: 0000-0003-1872-9820

Maintainer: Krishna Choudhary <kchoudhary at ucdavis.edu>

Citation (from within R, enter citation("dStruct")):

Krishna Choudhary, Sharon Aviran. dStruct: Identifying differentially reactive regions from RNA structurome profiling data. doi:10.18129/B9.bioc.dStruct, R package version 1.19.0, https://bioconductor.org/packages/dStruct.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("dStruct")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("dStruct")

Differential RNA structurome analysis using `dStruct`	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Sequencing, Software, StatisticalMethod, StructuralPrediction
Version	1.19.0
In Bioconductor since	BioC 3.14 (R-4.1) (5 years)
License	GPL (>= 2)
Depends	R (>= 4.1)
Imports	zoo, ggplot2, purrr, reshape2, parallel, IRanges, S4Vectors, rlang, grDevices, stats, utils
System Requirements
URL	https://github.com/dataMaster-Kris/dStruct
Bug Reports	https://github.com/dataMaster-Kris/dStruct/issues

Suggests	BiocStyle, knitr, rmarkdown, tidyverse, testthat (>= 3.0.0)
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	dStruct_1.19.0.tar.gz
Windows Binary (x86_64)	dStruct_1.19.0.zip (64-bit only)
macOS Binary (big-sur-x86_64)	dStruct_1.19.0.tgz
macOS Binary (sonoma-arm64)	dStruct_1.19.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/dStruct
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/dStruct
Package Short Url	https://bioconductor.org/packages/dStruct/
Package Downloads Report	Download Stats